Explore Workflows
View already parsed workflows here or click here to add your own
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workflow_input_sf_expr_array_v1_1.cwl
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https://github.com/common-workflow-language/cwl-utils.git
Path: testdata/workflow_input_sf_expr_array_v1_1.cwl Branch/Commit ID: 513bf79c9e3ba98306006a87165de18bac7c04ee |
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echo-wf-default.cwl
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https://github.com/common-workflow-language/cwl-v1.1.git
Path: tests/echo-wf-default.cwl Branch/Commit ID: 5e3fac092a720c5670ae3e787eabe1aaade71d83 |
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Detect Variants workflow
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https://github.com/genome/analysis-workflows.git
Path: definitions/pipelines/detect_variants.cwl Branch/Commit ID: 27aa22e6f5d2fca75abca42d52867259fd0725b9 |
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facets-workflow.cwl
Workflow for running Facets-suite on a set of tumor normal pairs This workflow scatters over all the pairs in the input JSON to run all samples in parallel Input JSON format ----------------- { \"pairs\": [ { \"tumor_bam\": { \"class\": \"File\", \"path\": \"/test_data/bam/Tumor1.rg.md.abra.printreads.bam\" }, \"normal_bam\": { \"class\": \"File\", \"path\": \"/test_data/bam/Normal1.rg.md.abra.printreads.bam\" }, \"pair_maf\": { \"class\": \"File\", \"path\": \"/test_data/bam/Tumor1.Normal1.maf\" }, \"pair_id\": \"Tumor1.Normal1\" }, { \"tumor_bam\": { \"class\": \"File\", \"path\": \"/test_data/bam/Tumor2.rg.md.abra.printreads.bam\" }, \"normal_bam\": { \"class\": \"File\", \"path\": \"/test_data/bam/Normal2.rg.md.abra.printreads.bam\" }, \"pair_maf\": { \"class\": \"File\", \"path\": \"/test_data/bam/Tumor2.Normal2.maf\" }, \"pair_id\": \"Tumor2.Normal2\" } ] } Output format ------------- output └── facets-suite ├── Tumor1.Normal1.arm_level.txt ├── Tumor1.Normal1.gene_level.txt ├── Tumor1.Normal1_hisens.ccf.maf ├── Tumor1.Normal1_hisens.rds ├── Tumor1.Normal1_hisens.seg ├── Tumor1.Normal1_purity.rds ├── Tumor1.Normal1_purity.seg ├── Tumor1.Normal1.qc.txt ├── Tumor1.Normal1.snp_pileup.gz ├── Tumor1.Normal1.txt ├── Tumor2.Normal2.arm_level.txt ├── Tumor2.Normal2.gene_level.txt ├── Tumor2.Normal2_hisens.ccf.maf ├── Tumor2.Normal2_hisens.rds ├── Tumor2.Normal2_hisens.seg ├── Tumor2.Normal2_purity.rds ├── Tumor2.Normal2_purity.seg ├── Tumor2.Normal2.qc.txt ├── Tumor2.Normal2.snp_pileup.gz ├── Tumor2.Normal2.txt └── logs ├── success └── failed |
https://github.com/mskcc/pluto-cwl.git
Path: cwl/facets-workflow.cwl Branch/Commit ID: 2e1a01a788126f2901ffecc92a48fcbcb81776e1 |
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workflow_inputs.cwl
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https://github.com/common-workflow-lab/wdl-cwl-translator.git
Path: wdl2cwl/tests/cwl_files/workflow_inputs.cwl Branch/Commit ID: e7218988f186a2e9118676c339fbc5e640608049 |
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sec-wf-out.cwl
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https://github.com/common-workflow-language/cwltool.git
Path: tests/wf/sec-wf-out.cwl Branch/Commit ID: 256306a5da1eb0a8391d5f6734e7baae96922079 |
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Get Proteins
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https://github.com/ncbi/pgap.git
Path: wf_bacterial_prot_src.cwl Branch/Commit ID: a1f39f21670be28427ceb91ceaeb9339545c18fc |
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bacterial_orthology_cond
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https://github.com/ncbi/pgap.git
Path: bacterial_orthology/wf_bacterial_orthology_conditional.cwl Branch/Commit ID: 8c21035bff3cbffccf5682bd0357a6d71f3bdb81 |
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count-lines7-wf_v1_2.cwl
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https://github.com/common-workflow-language/cwl-utils.git
Path: testdata/count-lines7-wf_v1_2.cwl Branch/Commit ID: 513bf79c9e3ba98306006a87165de18bac7c04ee |
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personal_genome_input_wf.cwl
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https://github.com/kids-first/kf-rnaseq-workflow.git
Path: workflow/personal_genome_input_wf.cwl Branch/Commit ID: 5d9dd57011df312e3ecdea4e64d71e24ed38ac12 |
